Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Hdac1

Cell type

Cell type Class
Neural
Cell type
Basal Ganglia
MeSH Description
Large subcortical nuclear masses derived from the telencephalon and located in the basal regions of the cerebral hemispheres.

Attributes by original data submitter

Sample

source_name
Basal Ganglia
strain
CD1
age
E13.5
chip antibody
Bethyl, A300-713A

Sequenced DNA Library

library_name
GSM5827351
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP: Cells were treated with 5mM DSG followed by 1% PFA prior to generating nuclear extracts. Extracts were sonicated for 10 minutes prior to adding listed antibody to pull down bound DNA Libraries were constructed using Nugen Ovation Ultralow DR Multiplex System and size selected in the range of 180-400bp

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
36513614
Reads aligned (%)
98.1
Duplicates removed (%)
22.0
Number of peaks
8634 (qval < 1E-05)

mm9

Number of total reads
36513614
Reads aligned (%)
98.0
Duplicates removed (%)
22.1
Number of peaks
8623 (qval < 1E-05)

Base call quality data from DBCLS SRA